view circos-files/synteny-region-default.conf @ 6:8a4190457eb7 draft

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# The <ideogram> block defines the position, size, labels and other
# properties of the segments on which data are drawn. These segments
# are usually chromosomes, but can be any integer axis.

<ideogram>

<spacing>
# Spacing between ideograms. Suffix "r" denotes a relative value. It
# is relative to circle circumference (e.g. space is 0.5% of
# circumference).
default = 0.005r
</spacing>

# Ideogram position, thickness and fill. 
#
# Radial position within the image of the ideograms. This value is
# usually relative ("r" suffix).
radius           = 0.65r

# Thickness of ideograms, which can be absolute (e.g. pixels, "p"
# suffix) or relative ("r" suffix). When relative, it is a fraction of
# image radius.
thickness        = 30p

# Ideograms can be drawn as filled, outlined, or both. When filled,
# the color will be taken from the last field in the karyotype file,
# or set by chromosomes_colors. Color names are discussed in
#
# http://www.circos.ca/documentation/tutorials/configuration/configuration_files
#
# When stroke_thickness=0p or if the parameter is missing, the ideogram is
# has no outline and the value of stroke_color is not used.

fill             = yes   # A

stroke_color     = dgrey # B
stroke_thickness = 1p    # B

# Minimum definition for ideogram labels.

show_label       = yes
# see etc/fonts.conf for list of font names
label_font       = bold
label_radius     = (dims(ideogram,radius_inner)+dims(ideogram,radius_outer)-conf(ideogram,label_size))/2
label_with_tag   = yes

label_size       = 14 
label_color = white
label_parallel   = yes


</ideogram>



show_ticks          = yes
show_tick_labels    = yes

<ticks>

radius           = 1r
color            = black
thickness        = 1p

# the tick label is derived by multiplying the tick position
# by 'multiplier' and casting it in 'format':
#
# sprintf(format,position*multiplier)

multiplier       = 1e-6

# %d   - integer
# %f   - float
# %.1f - float with one decimal
# %.2f - float with two decimals
#
# for other formats, see http://perldoc.perl.org/functions/sprintf.html

format           = %d

<tick>
spacing        = 0.1u
size           = 5p
</tick>

<tick>
spacing        = 1u
size           = 10p
show_label     = yes
label_size     = 12p
label_offset   = 10p
format         = %d
</tick>

</ticks>

#
# These should be present in every Circos configuration file and
# overridden as required. To see the content of these files, 
# look in etc/ in the Circos distribution.



# RGB/HSV color definitions, color lists, location of fonts, fill patterns.
# Included from Circos distribution.
<<include etc/colors_fonts_patterns.conf>> 

# Debugging, I/O an dother system parameters
# Included from Circos distribution.
<<include etc/housekeeping.conf>>